{"id":"W2047264823","doi":"10.1371/journal.pgen.1000157","title":"Selective Constraints in Experimentally Defined Primate Regulatory Regions","year":2008,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":23,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; McGill University and Génome Québec Innovation Centre","funders":"National Institute of General Medical Sciences; Canadian Institutes of Health Research; National Institutes of Health","keywords":"Biology; DNA binding site; Genetics; Computational biology; Chromatin immunoprecipitation; Gene; Regulatory sequence; ChIP-sequencing; Conserved sequence; Transcription factor; Promoter; Gene expression; Chromatin remodeling","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00004876524,0.0001620759,0.0001478787,0.00004808034,0.00008457452,0.000009064789,0.0001726345,0.0001429751,0.00001521231],"category_scores_gemma":[0.00002194749,0.0001820385,0.00005855062,0.00008427776,0.0002091072,0.00000163073,0.0001028015,0.00008421626,0.00001254922],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004635614,"about_ca_system_score_gemma":0.0001643362,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002241108,"about_ca_topic_score_gemma":0.00003047757,"domain_scores_codex":[0.9990251,0.00003616048,0.0002355673,0.0003131223,0.0001190947,0.0002709614],"domain_scores_gemma":[0.9994388,0.000007034383,0.00007454254,0.0003408543,0.00005989249,0.00007889823],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00002534529,0.0001914938,0.01251825,0.00001203697,0.00004859462,0.00001326203,0.0002997108,0.0003082014,0.9856272,0.000234971,0.0006149658,0.0001060162],"study_design_scores_gemma":[0.0009666415,0.0002485382,0.01509844,0.00001828643,0.00001384906,0.0000991329,0.000168658,0.001727612,0.9803405,0.0002850146,0.0006644144,0.0003689314],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.995489,0.0006594836,0.000149324,0.00003968444,0.00005826651,0.0002096927,0.00001803288,0.00001432337,0.003362213],"genre_scores_gemma":[0.9955177,0.0004017398,0.003522621,0.000164189,0.0000628567,0.00002883382,0.00008127058,0.00003362036,0.0001871779],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.005286663,"threshold_uncertainty_score":0.7423314,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01320236160935303,"score_gpt":0.2276279357170716,"score_spread":0.2144255741077186,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}